Genome Detective

NGS Details (SRR3458562_Metagenome_example): Rotavirus A (segment 3)

Assembly

Coverage Length

2591 (1 contig(s))

Depth Of Coverage

8528.2

Number Of Reads

203956

Reads Per Million

13160.15 rpm (after QC)

Ambiguities

Assembly Method

de novo + reference guided assembly

Consensus Caller

Bcf Tools

Coverage Map

Map

Variant Tables

Consensus Variants

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Minority Variants

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SNP Variants Table

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Annotated Variants Table

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Assignment

Type

Rotavirus A (Taxonomy ID: 28875)

Reference Genome

NC_011508.2

NT Identity (%)

77.7692

AA Identity (%)

84.8086

Number Of Stop Codons

Number Of CDS

Alignment

Segment

segment 3

Alignment Score

2878.0 (NT) + 5089.0 (AA) = 7967.0

Concordance (%)

72.7381

Alignment Method

Global, seeded, nucleotide + amino acids (AGA)

NT Alignment

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Region Bam File

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CDS Alignment

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Consensus Sequence

Download consensus sequence (FASTA) (Including IUPAC ambiguity codes)

Consensus Contigs

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Genome Region

Sequence starts at position 1 and ends at position 2591 relative to NC_011508.2 reference sequence.

NC_011508.2

SRR3458562_Metagenome_example-NC_011508.2-89-2

NC_011508.2

SRR3458562_Metagenome_example-NC_011508.2-89-2

GGCTTTTAAAGCAGTACCAGTAGTGTGTTTTACCTCTGATGGTGTAAACATGAAAGTACTAGCTTTAAGACACAGTGTGGCTCAAGTGTATGCAGACACTCAAGTCTACGTTCATGATGATACAAAAGATAGTTATGAAAACGCTTTTTTAATCTCTAATCTTACGACCCATAATATTTTATACTTAAATTATAGCATTAAAACATTAGAAATATTAAATAAGTCAGGAATAGCTGCAATTGCTTTACAATCACTTGAAGAATTATTCACATTAATAAGGTGTAATTTCACTTATGATTATGAACTTGATATAATATATTTACATGATTATTCATATTATACCAATAATGAAATTAGAACAGACCAACATTGGATAACAAAAACAAATATTGAAGAATATTTACTACCTGGATGGAAATTAACATATGTTGGTTATAATGGAAGTGAAACTAGAGGACATTATAACTTTTCATTTAAATGTCAAAACGCTGCAACAGATGATGATCTAATAATTGAATACATTTATTCAGAAGCGTTGGACTTCCAAAATTTTATGTTAAAAAAGATAAAGGAAAGAATGACTACATCGTTGCCTATAGCTAGATTATCTAACAGAGTATTTAGGGATAAGTTATTCCCATCATTATTGAAAGAACATAAGAATGTAGTGAACGTTGGTCCGCGTAATGAATCTATGTTTACATTTTTAAATTATCCAACTATAAAACAATTTTCAAATGGTGCGTATTTAGTAAAAGATACTATAAAATTAAAACAAGAACGATGGTTAGGTAAAAGGATATCTCAGTTTGATATTGGTCAGTATAAAAATATGCTGAATGTTCTTACAGCAATTTATTATTACTATAATTTATATAAAAGTAAACCAATTATATATATGATCGGATCTGCTCCATCTTATTGGATATATGACGTTAGGCATTATTCCGATTTTTTCTTTGAAACTTGGGATCCATTGGACACACCATATTCATCAATC

CATCACAAAGAATTATTTTTTATAAATGATGTGAAGAAACTGAAGGATAACTCAATATTGTATATTGATATAAGAACCGATAGGGGCAATGCTGATTGGAAAAAATGGAGAAAGACAGTAGAAGAACAAACTATTAATAATTTGGACATAGCTTATGAATATTTACGAACGGGTAAAGCGAAGGTGTGTTGTGTTAAGATGACAGCTATGGATTTGGAACTGCCAATTTCAGCTAAATTACTGCACCACCCAACTACGGAAATAAGATCAGAATTTTATTTATTACTAGATACTTGGGATTTAACTAACATTAGGAGGTTCATTCCTAAAGGCGTGTTATATTCATTTATAAACAATATAATAACTGAAAATGTGTTTATTCAACAACCATTTAAAGTAAAAGTACTGAATGATAGTTATATTGTAGCGTTATATGCATTATCAAATGATTTTAATAATAGATCAGAAGTAATTAAATTAATTAATAATCAGAAACAATCTCTAATAACTGTTAGAATAAATAATACGTTTAAGGATGAACCAAAAGTTGGGTTCAAAAATATCTATGATTGGACCTTTCTTCCAACCGACTTTGATACCAAAGAAGCTATAATTACTTCATACGACGGTTGTTTAGGACTCTTTGGTTTGTCTATATCGTTAGCATCAAAACCAACAGGGAATAATCATTTATTCATTTTAAGTGGTACAGATAAGTATTATAAATTGGATCAATTTGCTAATCACACCAGTATATCGAGAAGATCACACCAAATTAGGTTTTCGGAATCTGCTACTTCATATTCAGGTTATATATTTAGAGATTTGTCCAATAATAATTTTAATCTAATTGGTACTAATATAGAGAATTCAGTATCAGGTCATGTATATAATGCTTTAATTTATTATAGATATAATTATTCATTTGATCTTAAACGCTGGATTTATTTACATTCTATAGATAAAGTTGATATAGAAGGAGGAAAGTATTATGAACTCG

CACCAATAGAATTAATTTATGCATGTAGATCAGCAAAAGAATTTGCTACATTGCAGGATGACTTAACTGTATTGAGATATTCAAACGAAATAGAGAATTATATTAATACAGTATATAGTATAACATACGCTGATGATCCGAATTACTTTATCGGAATACAATTTAGAAATATACCATATAAATATGATGTTAAAATACCGCATTTAACCTTCGGAGTATTACATATTTCTGATAACATGGTGCCAGACGTGATTGACATACTAAAGATAATGAAGAATGAATTATTTAAAATGGATATTACGACCAGTTATACATATATGTTATCAGATGGAATCTACGTAGCAAATGTTAGTGGAGTATTATCTACATACTTTAAAATCTATAACGTATTTTATAAAAATCAAATAACTTTTGGCCAATCCAGAATGTTTATTCCGCACATAACATTAAGCTTCAATAACATGAGAACAGTAAGGATAGAGACTACTAAATTACAAATTAAATCCATTTATTTAAGAAAGATTAAGGGTGATACAGTGTTTGATATGGTTGAGTGAGCTAAAAACTTAACACACTAGTCATGATGTGACC

GGCTATTAAAGCAATATTAGTAGTGTGTTTTACCTCTGATGGTGTAAACATGAAAGTATTAGCTTTAAGACATAGTGTGGCTCAGGTATATGCGGACACTCAAATATATACTCATGATGAAACCAAAGATGACTACGAGAACGCATTTTTAATTTCTAATCTCACTACACATAATATATTGTATCTAAATTATAGCGTTAAGACATTGCAAATATTGAATAAATCTGGTATAGCTGCGGTAGAAATACAGGAGATGGATGAATTGTTTACGCTAATTAGATGCAACTTCACATATGATTATATTGACGACATTGTTTACCTTCATGATTATTCATACTATACTAATAATGAGATAAGGACTGATCAACATTGGGTAACTAAAACAAATATAGAAGACTATTTATTACCAGGATGGAAACTGACGTATGTTGGATATAACGGAAATGACACAAGAGGGCACTATAACTTTTCTTTTAAATGTCAAAATGCAGCTACGGACGATGATGCAATAATAGAATATATTTATTCAAATGAATTGGACTTCCAAAATTTCATACTTAAAAAAATCAAAGAAAGGATGACGACATCACTGCCAATAGCGAGATTATCGAATCGTGTGTTCAGAGACAAATTATTTAAGACGCTAGTATCAGATCACAGTAGAGTAGTTAACGTTGGACCAAGAAATGAATCTATGTTTACTTTTCTAGATCACCCGTCAATAAAGCAATTTTCAAATGGACCCTATTTAGTTAAAGATACGATAAAGCTTAAACAAGAGAGATGGCTCGGTAAGAGACTATCGCAATTTGACATTGGTCAGTATAAGAACATGCTAAATGTATTAACAACTTTATACCAATACTATGACATGTATCATGAGAAGCCAATAATTTACATGGTAGGATCAGCACCTTCATATTGGATACACGATGTCAGGCAATACTCTAATTTAAAGTTTGAGACATGGGACCCATTGGATACACCATACTCTGATTTG

CATCATAAAGAATTGTTTTATATAAGTGACGTAACCAAACTTAAAGATAATTCGATATTATATGTAGATATACGAACGGATAGAGAAAATACAGATTGGAAAGCGTGGAGGAAGATTGTGGAAGAGCAAACTATAAATAATTTGAATATCGCATACAAATACTTATCCACAGGAAAAGCTAAAGTATGTTGTGTTAAAATGACTGCCATGGATTTAGAACTACCAATATCTGCAAAACTACTACATCATCCAACTACAGAAATTAGGTCAGAATTTTATTTAATAATGGATATATGGGATTCTAAAAATATTAAACGATTTATACCGAAGGGCGTGTTATATTCATATATTAACAATGTAATTACTGAGAACGTGTTCATACAACAACCGTTTAAATTGAAAACGTTAAGGAATGAATATGTGGTTGCATTATACGCACTGTCTAACGACTTTAATAATAGAGAGGATGTGATAAAATTGGTTAACAATCAGAAGAATGCGTTAATAACTGTGAGGATAAATAATACATTTAAAGATGAACCAAAAGTGGGGTTTAAAGATATTTATGACTGGACTTTTTTGCCAACTGATTTCGAAACGAATGAGTCAATAATCACGTCATATGATGGTTGTTTAGGTATGTTTGGCTTATCAATATCATTAGCTTCAAAACCAACTGGAAATAATCATCTGTTCATTTTGAGCGGTACTAATAAATATTTTAAATTGGATCAATTTGCGAATCATATGAGTATATCAAGACGGTCACATCAAATACGATTTTCGGAATCAGCGACTTCATATTCAGGTTACATTTTTAGAGATTTATCAAATAATAATTTTAATTTAATAGGTACGAATGTTGAGAATTCGGTATCTGGACATGTGTACAATGCATTGATTTATTATAGATATAATTATTCATTCGATCTTAAGCGATGGATATACTTACATGCAACAAACAAGGCTGGCATTGAAGGCGGCAGATACTATGAACATG

CTCCGATAGAGTTGATTTACGCATGTAGATCGGCAAAGGAATTCGCAAAATTGCAAGATGATTTAACAGTACTAAGATATTCGAATGAAATAGAAGATTACATTAATAAAGTGTACAGTATAACATACGCCGACGATCCGAACTACTTTATTGGAATTAAGTTCAAAAATATACCATATGAATATGATGTTAAAGTACCGCATCTTACATTTGGTGTATTAAATATTTCAGATTCCATGGTGCCGGATGTAGTAGCAATTTTAAAGAAGTTTAAAAGTGAATTGTTTAGAATGGATGTAACCACAAGTTATACGTATATGTTGTCAGATGAAATCTATGTGGCAAACGTAAGTGGTGTGTTATCAACATATTTTAAACTTTACAATGCATTCTATAAAGAGCAAATTACGTTTGGACAATCAAGAATGTTTATTCCGCACATAACATTAAGTTTCAGTAACAAGAAAGTAGTGAGAATAGATAGTACGCGATTGAACATAGACTTTATATATTTGAGGAAAATAAAAGGCGATACAGTGTTCGATATGACTGAGTGAGCTAAAAACTTAACACACTGGTCACGATGTGACC

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VP3

MKVLALRHSVAQVYADTQVYVHDDTKDSYENAFLISNLTTHNILYLNYSIKTLEILNKSGIAAIALQSLEELFTLIRCNFTYDYELDIIYLHDYSYYTNNEIRTDQHWITKTNIEEYLLPGWKLTYVGYNGSETRGHYNFSFKCQNAATDDDLIIEYIYSEALDFQNFMLKKIKERMTTSLPIARLSNRVFRDKLFPSLLKEHKNVVNVGPRNESMFTFLNYPTIKQFSNGAYLVKDTIKLKQERWLGKRISQFDIGQYKNMLNVLTAIYYYYNLYKSKPIIYMIGSAPSYWIYDVRHYSDFFFETWDPLDTPYSSIHHKELFFINDVKKLKDNSILYIDIRTDRGNADWKKWRKTVEEQTINNLDIAYEYLRTGKAKVCCVKMTAMDLELPISAKLLHHPTTEIRSEFYLLLDTWDLTNIRRFIPKGVLYSFINNIITENVFIQQPFKVKVLNDSYIVALYALSNDFNNRSEVIKLINNQKQSLITVRINNTFKDEPKVGFKNIYDWTFLPTDFDTKEAIITSYDGCLGLFGLSISLASKPTGNNHLFILSGTDKYYKLDQFANHTSISRRSHQIRFSESATSYSGYIFRDLSNNNFNLIGTNIENSVSGHVYNALIYYRYNYSFDLKRWIYLHSIDKVDIEGGKYYELAPIELIYACRSAKEFATLQDDLTVLRYSNEIENYINTVYSITYADDPNYFIGIQFRNIPYKYDVKIPHLTFGVLHISDNMVPDVIDILKIMKNELFKMDITTSYTYMLSDGIYVANVSGVLSTYFKIYNVFYKNQITFGQSRMFIPHITLSFNNMRTVRIETTKLQIKSIYLRKIKGDTVFDMVE*

MKVLALRHSVAQVYADTQIYTHDETKDDYENAFLISNLTTHNILYLNYSVKTLQILNKSGIAAVEIQEMDELFTLIRCNFTYDYIDDIVYLHDYSYYTNNEIRTDQHWVTKTNIEDYLLPGWKLTYVGYNGNDTRGHYNFSFKCQNAATDDDAIIEYIYSNELDFQNFILKKIKERMTTSLPIARLSNRVFRDKLFKTLVSDHSRVVNVGPRNESMFTFLDHPSIKQFSNGPYLVKDTIKLKQERWLGKRLSQFDIGQYKNMLNVLTTLYQYYDMYHEKPIIYMVGSAPSYWIHDVRQYSNLKFETWDPLDTPYSDLHHKELFYISDVTKLKDNSILYVDIRTDRENTDWKAWRKIVEEQTINNLNIAYKYLSTGKAKVCCVKMTAMDLELPISAKLLHHPTTEIRSEFYLIMDIWDSKNIKRFIPKGVLYSYINNVITENVFIQQPFKLKTLRNEYVVALYALSNDFNNREDVIKLVNNQKNALITVRINNTFKDEPKVGFKDIYDWTFLPTDFETNESIITSYDGCLGMFGLSISLASKPTGNNHLFILSGTNKYFKLDQFANHMSISRRSHQIRFSESATSYSGYIFRDLSNNNFNLIGTNVENSVSGHVYNALIYYRYNYSFDLKRWIYLHATNKAGIEGGRYYEHAPIELIYACRSAKEFAKLQDDLTVLRYSNEIEDYINKVYSITYADDPNYFIGIKFKNIPYEYDVKVPHLTFGVLNISDSMVPDVVAILKKFKSELFRMDVTTSYTYMLSDEIYVANVSGVLSTYFKLYNAFYKEQITFGQSRMFIPHITLSFSNKKVVRIDSTRLNIDFIYLRKIKGDTVFDMTE*

Alignment Detailed Statistics


	Begin	End	Coverage	Score	Concordance	Matches	Identities	I/D/M/F^*	Stop Codons
NT	1	2591	100%	2878	55.5%	2591 (100%)	2015 (77.8%)	0/0
Mutations:	5T>A, 14G>A, 17C>T, 18C>T, 59C>T, 73C>T, 85A>G, 88G>A, 94A>G, 104G>A, 106C>A, 109C>T, 110G>A, 111T>C, 121T>A, 124A>C, 131A>G, 132G>A, 133T>C, 136T>C, 139A>G, 145T>A, 154C>T, 163T>C, 166G>T, 169C>A, 178T>A, 181A>G, 184C>T, 185T>C, 197A>G, 202A>G, 208A>G, 209G>C, 217A>G, 223G>A, 226A>T, 229A>T, 238A>G, 239A>G, 241T>A, 243C>A, 244T>A, 245T>A, 250A>G, 251T>G, 252C>A, 253A>G, 254C>A, 256T>G, 259A>T, 265A>G, 268C>T, 271A>G, 272T>C, 277A>T, 280G>A, 283T>C, 286T>C, 292T>A, 302G>A, 303A>T, 304A>T, 305C>G, 306T>A, 307T>C, 310T>C, 313A>T, 314A>G, 316A>T, 319T>C, 320T>C, 322A>T, 337T>C, 343C>T, 352A>G, 355T>A, 358A>G, 361A>T, 364C>T, 374A>G, 379A>T, 391T>A, 397A>C, 404C>T, 409T>A, 419T>C, 421A>G, 424A>G, 433T>A, 439T>C, 444G>A, 448A>C, 451T>A, 457A>G, 460T>C, 472A>T, 487C>T, 490T>A, 493A>T, 496A>G, 499T>C, 506C>G, 507T>C, 514T>A, 520C>T, 530G>A, 532A>T, 534C>A, 535G>A, 553T>C, 556G>A, 557T>C, 559A>T, 565G>A, 568A>C, 571G>A, 577A>G, 583T>G, 589G>A, 590T>C, 595T>A, 601T>G, 610T>G, 613C>T, 614A>C, 616A>T, 619A>G, 622T>C, 625G>A, 628T>C, 631G>A, 637C>T, 638C>A, 639C>A, 640A>G, 641T>A, 643A>G, 644T>C, 647T>G, 649G>A, 650A>T, 651A>C, 655A>T, 658T>C, 660A>G, 661G>T, 663A>G, 664T>A, 670G>T, 679T>A, 682G>A, 683C>A, 685T>A, 703A>T, 707T>C, 710A>G, 713T>C, 715T>C, 718A>G, 719A>T, 721T>A, 727A>G, 742T>A, 743G>C, 745G>C, 754A>T, 763T>G, 769A>G, 770T>C, 772A>T, 781A>G, 782C>A, 788T>C, 790A>C, 796A>G, 799G>A, 800A>C, 805T>G, 808G>A, 814T>C, 829A>G, 832T>C, 838G>A, 844T>A, 845C>T, 847T>A, 851G>A, 853A>T, 854A>T, 856T>A, 859T>C, 860T>C, 862T>A, 869A>G, 871T>C, 872T>A, 874A>G, 878A>C, 880A>T, 881A>G, 882G>A, 883T>G, 886A>G, 892T>A, 895A>T, 898T>C, 902A>G, 904C>A, 910T>A, 913T>A, 916A>T, 919T>A, 929T>C, 931T>C, 934C>T, 937T>C, 943T>A, 946T>C, 949C>T, 950G>A, 955T>A, 956T>A, 957T>A, 958C>G, 964A>G, 967T>A, 973T>C, 982C>T, 991T>C, 994A>T, 995T>G, 996C>A, 997A>T, 998A>T, 1000C>G, 1006C>T, 1015A>G, 1020T>A, 1026A>G, 1030T>C, 1033G>A, 1035A>C, 1036G>C, 1042G>T, 1045G>A, 1051C>T, 1054A>G, 1060G>A, 1064A>G, 1066T>A, 1073A>C, 1078C>G, 1084G>A, 1086G>A, 1087C>A, 1091G>A, 1093T>A, 1103A>G, 1104A>C, 1105A>G, 1111A>G, 1116C>T, 1117A>T, 1120A>G, 1126A>G, 1135T>A, 1145G>A, 1147C>T, 1150A>C, 1153T>A, 1156T>C, 1157G>A, 1162T>C, 1166C>T, 1167G>C, 1168A>C, 1171G>A, 1174T>A, 1180G>T, 1183G>A, 1186G>A, 1198G>A, 1204A>T, 1207T>C, 1216G>A, 1222G>A, 1228T>A, 1231A>T, 1234T>A, 1238T>C, 1243G>A, 1246C>T, 1249C>T, 1258G>A, 1264A>T, 1267A>G, 1283T>A, 1286C>A, 1288A>G, 1293C>T, 1294T>A, 1302T>C, 1303A>T, 1305C>A, 1306T>A, 1309C>T, 1314G>A, 1315G>A, 1316A>C, 1318G>A, 1321C>T, 1324T>A, 1327T>G, 1330A>G, 1347T>A, 1351A>T, 1358A>G, 1363A>T, 1369A>G, 1372T>C, 1378T>C, 1381T>A, 1390A>G, 1397G>T, 1399A>G, 1403G>A, 1404T>C, 1405A>G, 1406C>T, 1408G>A, 1410A>G, 1411T>G, 1412G>A, 1415A>G, 1416G>A, 1417T>A, 1421A>G, 1423T>G, 1426A>T, 1429G>A, 1435T>C, 1439T>C, 1441A>G, 1444A>T, 1447T>C, 1450T>C, 1463T>G, 1464C>A, 1465A>G, 1468A>T, 1471A>G, 1474T>A, 1480A>G, 1481A>G, 1486T>C, 1495A>G, 1496C>A, 1498A>T, 1499T>G, 1501T>G, 1502C>T, 1513T>G, 1516A>G, 1528G>A, 1534G>A, 1549T>G, 1555C>T, 1559A>G, 1564C>T, 1570T>C, 1576C>T, 1580C>T, 1582T>G, 1588C>T, 1591C>T, 1594T>C, 1597T>A, 1600C>G, 1603A>T, 1606A>G, 1607G>T, 1609T>A, 1615T>C, 1618T>G, 1624C>T, 1627C>T, 1639A>T, 1640C>A, 1642C>G, 1648T>C, 1651G>A, 1654T>A, 1660G>A, 1666A>T, 1678A>T, 1681G>A, 1691T>C, 1693A>G, 1702A>G, 1705T>C, 1711A>T, 1712G>A, 1717G>A, 1722A>T, 1741T>G, 1747C>T, 1749C>T, 1750C>G, 1759G>A, 1763A>C, 1765A>G, 1771C>T, 1777T>A, 1778A>C, 1780G>A, 1792T>A, 1795T>G, 1813T>C, 1816A>T, 1828G>A, 1831C>A, 1847C>T, 1852T>A, 1858T>G, 1862A>G, 1864A>T, 1873A>G, 1879A>T, 1882T>A, 1888A>G, 1891T>C, 1897T>A, 1900A>G, 1927T>C, 1936A>G, 1939C>A, 1945T>A, 1948T>C, 1955T>G, 1957T>A, 1959T>C, 1961G>A, 1963T>C, 1966A>G, 1968T>C, 1971A>G, 1972T>C, 1975A>T, 1981A>C, 1984A>C, 1986A>G, 1987G>A, 1990T>C, 1998T>A, 1999C>T, 2002A>T, 2005A>G, 2011A>G, 2014A>G, 2020T>C, 2032A>G, 2038A>G, 2044T>C, 2047T>A, 2049C>A, 2056G>A, 2062C>T, 2068T>A, 2072T>C, 2074G>A, 2083A>G, 2086C>T, 2095G>A, 2096A>G, 2101T>C, 2109C>A, 2113A>G, 2116T>C, 2131T>C, 2134T>C, 2143T>C, 2152C>T, 2158A>T, 2159C>A, 2161A>G, 2164T>C, 2166G>A, 2180A>G, 2195A>G, 2204T>C, 2206A>T, 2209C>A, 2212C>T, 2215A>T, 2222C>A, 2230T>A, 2234A>T, 2235A>C, 2245A>G, 2248C>T, 2251G>A, 2252A>G, 2254T>A, 2256A>C, 2257C>A, 2260A>T, 2261C>T, 2268T>A, 2269A>G, 2270A>T, 2272G>T, 2275G>A, 2277A>G, 2284A>G, 2289A>G, 2297A>G, 2299T>A, 2302G>C, 2305C>A, 2314A>G, 2323A>G, 2331G>A, 2338C>T, 2341A>G, 2347T>C, 2350T>A, 2356A>T, 2359A>G, 2365T>A, 2371C>T, 2378A>C, 2380C>T, 2383T>C, 2386C>T, 2388T>C, 2392T>C, 2399A>G, 2401T>G, 2407A>T, 2410T>G, 2416C>A, 2422C>A, 2452C>T, 2457A>G, 2463T>A, 2466G>A, 2468A>G, 2469C>T, 2473A>G, 2476G>A, 2482G>T, 2484C>G, 2488T>G, 2489A>C, 2490A>G, 2494A>G, 2495C>A, 2497A>C, 2500T>A, 2501A>G, 2503A>C, 2505C>T, 2506C>T, 2509T>A, 2515A>G, 2518A>G, 2521G>A, 2524T>A, 2527G>A, 2530T>C, 2542T>C, 2549G>A, 2550T>C, 2577A>G, 2582T>C
CDS

VP3	1	836	100%	5089	88.2%	836 (100%)	709 (84.8%)	0/0/0/0	1
Protein mutations:	V19I (104G>A 106C>A), V21T (110G>A 111T>C), D24E (121T>A), S28D (131A>G 132G>A 133T>C), I50V (197A>G), E54Q (209G>C), I64V (239A>G 241T>A), A65E (243C>A 244T>A), L66I (245T>A), S68E (251T>G 252C>A 253A>G), L69M (254C>A 256T>G), E70D (259A>T), E85I (302G>A 303A>T 304A>T), L86D (305C>G 306T>A 307T>C), I89V (314A>G 316A>T), I109V (374A>G), E116D (397A>C), S132N (444G>A), E133D (448A>C), L153A (506C>G 507T>C), E161N (530G>A 532A>T), A162E (534C>A 535G>A), M169I (556G>A), P197K (638C>A 639C>A 640A>G), S198T (641T>A 643A>G), L200V (647T>G 649G>A), K201S (650A>T 651A>C), E202D (655A>T), K204S (660A>G 661G>T), N205R (663A>G 664T>A), N221D (710A>G), Y222H (713T>C 715T>C), T224S (719A>T 721T>A), A232P (743G>C 745G>C), I251L (800A>C), A268T (851G>A 853A>T), I269L (854A>T 856T>A), Y271Q (860T>C 862T>A), N274D (869A>G 871T>C), L275M (872T>A 874A>G), K277H (878A>C 880A>T), S278E (881A>G 882G>A 883T>G), I285V (902A>G 904C>A), Y294H (929T>C 931T>C), H298Q (943T>A), D301N (950G>A), F302L (955T>A), F303K (956T>A 957T>A 958C>G), S316D (995T>G 996C>A 997A>T), I317L (998A>T 1000C>G), F324Y (1020T>A), N326S (1026A>G), K329T (1035A>C 1036G>C), I339V (1064A>G 1066T>A), G346E (1086G>A 1087C>A), A348T (1091G>A 1093T>A), K352A (1103A>G 1104A>C 1105A>G), T356I (1116C>T 1117A>T), D366N (1145G>A 1147C>T), E370K (1157G>A), R373S (1166C>T 1167G>C 1168A>C), L412I (1283T>A), L413M (1286C>A 1288A>G), T415I (1293C>T 1294T>A), L418S (1302T>C 1303A>T), T419K (1305C>A 1306T>A), R422K (1314G>A 1315G>A), F433Y (1347T>A), I437V (1358A>G), V450L (1397G>T 1399A>G), V452T (1403G>A 1404T>C 1405A>G), N454R (1410A>G 1411T>G), D455N (1412G>A), S456E (1415A>G 1416G>A 1417T>A), I458V (1421A>G 1423T>G), S472E (1463T>G 1464C>A 1465A>G), E473D (1468A>T), I478V (1481A>G), Q483N (1496C>A 1498A>T), S484A (1499T>G 1501T>G), N504D (1559A>G), D516E (1597T>A), K518N (1603A>T), A520S (1607G>T 1609T>A), L531M (1640C>A 1642C>G), D555N (1712G>A), Y558F (1722A>T), T567M (1749C>T 1750C>G), I605V (1862A>G 1864A>T), S636A (1955T>G 1957T>A), I637T (1959T>C), D638N (1961G>A 1963T>C), V640A (1968T>C), D641G (1971A>G 1972T>C), K646R (1986A>G 1987G>A), L650H (1998T>A 1999C>T), T667K (2049C>A), N683D (2096A>G), T687K (2109C>A), Q704K (2159C>A 2161A>G), R706K (2166G>A), K711E (2180A>G), I716V (2195A>G), H725N (2222C>A), N729S (2234A>T 2235A>C), I735V (2252A>G 2254T>A), D736A (2256A>C 2257C>A), I740K (2268T>A 2269A>G), M741F (2270A>T 2272G>T), N743S (2277A>G), K747R (2289A>G), I750V (2297A>G 2299T>A), G761E (2331G>A), I777L (2378A>C 2380C>T), V780A (2388T>C), N784E (2399A>G 2401T>G), N803S (2457A>G), M805K (2463T>A), R806K (2466G>A), T807V (2468A>G 2469C>T), E811D (2482G>T), T812S (2484C>G), K814R (2489A>C 2490A>G), Q816N (2495C>A 2497A>C), K818D (2501A>G 2503A>C), S819F (2505C>T 2506C>T), V834T (2549G>A 2550T>C)
Codon mutations:	CTA4TTA (59C>T), CAC8CAT (73C>T), CAA12CAG (85A>G), GTG13GTA (88G>A), GCA15GCG (94A>G), GTC19ATA (104G>A 106C>A), TAC20TAT (109C>T), GTT21ACT (110G>A 111T>C), GAT24GAA (121T>A), ACA25ACC (124A>C), AGT28GAC (131A>G 132G>A 133T>C), TAT29TAC (136T>C), GAA30GAG (139A>G), GCT32GCA (145T>A), ATC35ATT (154C>T), CTT38CTC (163T>C), ACG39ACT (166G>T), ACC40ACA (169C>A), ATT43ATA (178T>A), TTA44TTG (181A>G), TAC45TAT (184C>T), TTA46CTA (185T>C), ATT50GTT (197A>G), AAA51AAG (202A>G), TTA53TTG (208A>G), GAA54CAA (209G>C), TTA56TTG (217A>G), AAG58AAA (223G>A), TCA59TCT (226A>T), GGA60GGT (229A>T), GCA63GCG (238A>G), ATT64GTA (239A>G 241T>A), GCT65GAA (243C>A 244T>A), TTA66ATA (245T>A), CAA67CAG (250A>G), TCA68GAG (251T>G 252C>A 253A>G), CTT69ATG (254C>A 256T>G), GAA70GAT (259A>T), TTA72TTG (265A>G), TTC73TTT (268C>T), ACA74ACG (271A>G), TTA75CTA (272T>C), ATA76ATT (277A>T), AGG77AGA (280G>A), TGT78TGC (283T>C), AAT79AAC (286T>C), ACT81ACA (292T>A), GAA85ATT (302G>A 303A>T 304A>T), CTT86GAC (305C>G 306T>A 307T>C), GAT87GAC (310T>C), ATA88ATT (313A>T), ATA89GTT (314A>G 316A>T), TAT90TAC (319T>C), TTA91CTT (320T>C 322A>T), TAT96TAC (337T>C), ACC98ACT (343C>T), GAA101GAG (352A>G), ATT102ATA (355T>A), AGA103AGG (358A>G), ACA104ACT (361A>T), GAC105GAT (364C>T), ATA109GTA (374A>G), ACA110ACT (379A>T), ATT114ATA (391T>A), GAA116GAC (397A>C), CTA119TTA (404C>T), CCT120CCA (409T>A), TTA124CTG (419T>C 421A>G), ACA125ACG (424A>G), GGT128GGA (433T>A), AAT130AAC (439T>C), AGT132AAT (444G>A), GAA133GAC (448A>C), ACT134ACA (451T>A), GGA136GGG (457A>G), CAT137CAC (460T>C), TCA141TCT (472A>T), AAC146AAT (487C>T), GCT147GCA (490T>A), GCA148GCT (493A>T), ACA149ACG (496A>G), GAT150GAC (499T>C), CTA153GCA (506C>G 507T>C), ATT155ATA (514T>A), TAC157TAT (520C>T), GAA161AAT (530G>A 532A>T), GCG162GAA (534C>A 535G>A), TTT168TTC (553T>C), ATG169ATA (556G>A), TTA170CTT (557T>C 559A>T), AAG172AAA (565G>A), ATA173ATC (568A>C), AAG174AAA (571G>A), AGA176AGG (577A>G), ACT178ACG (583T>G), TCG180TCA (589G>A), TTG181CTG (590T>C), CCT182CCA (595T>A), GCT184GCG (601T>G), TCT187TCG (610T>G), AAC188AAT (613C>T), AGA189CGT (614A>C 616A>T), GTA190GTG (619A>G), TTT191TTC (622T>C), AGG192AGA (625G>A), GAT193GAC (628T>C), AAG194AAA (631G>A), TTC196TTT (637C>T), CCA197AAG (638C>A 639C>A 640A>G), TCA198ACG (641T>A 643A>G), TTA199CTA (644T>C), TTG200GTA (647T>G 649G>A), AAA201TCA (650A>T 651A>C), GAA202GAT (655A>T), CAT203CAC (658T>C), AAG204AGT (660A>G 661G>T), AAT205AGA (663A>G 664T>A), GTG207GTT (670G>T), GGT210GGA (679T>A), CCG211CCA (682G>A), CGT212AGA (683C>A 685T>A), ACA218ACT (703A>T), TTA220CTA (707T>C), AAT221GAT (710A>G), TAT222CAC (713T>C 715T>C), CCA223CCG (718A>G), ACT224TCA (719A>T 721T>A), AAA226AAG (727A>G), GGT231GGA (742T>A), GCG232CCC (743G>C 745G>C), GTA235GTT (754A>T), ACT238ACG (763T>G), AAA240AAG (769A>G), TTA241CTT (770T>C 772A>T), GAA244GAG (781A>G), CGA245AGA (782C>A), TTA247CTC (788T>C 790A>C), AAA249AAG (796A>G), AGG250AGA (799G>A), ATA251CTA (800A>C), TCT252TCG (805T>G), CAG253CAA (808G>A), GAT255GAC (814T>C), AAA260AAG (829A>G), AAT261AAC (832T>C), CTG263CTA (838G>A), GTT265GTA (844T>A), CTT266TTA (845C>T 847T>A), GCA268ACT (851G>A 853A>T), ATT269TTA (854A>T 856T>A), TAT270TAC (859T>C), TAT271CAA (860T>C 862T>A), AAT274GAC (869A>G 871T>C), TTA275ATG (872T>A 874A>G), AAA277CAT (878A>C 880A>T), AGT278GAG (881A>G 882G>A 883T>G), AAA279AAG (886A>G), ATT281ATA (892T>A), ATA282ATT (895A>T), TAT283TAC (898T>C), ATC285GTA (902A>G 904C>A), TCT287TCA (910T>A), GCT288GCA (913T>A), CCA289CCT (916A>T), TCT290TCA (919T>A), TAT294CAC (929T>C 931T>C), GAC295GAT (934C>T), GTT296GTC (937T>C), CAT298CAA (943T>A), TAT299TAC (946T>C), TCC300TCT (949C>T), GAT301AAT (950G>A), TTT302TTA (955T>A), TTC303AAG (956T>A 957T>A 958C>G), GAA305GAG (964A>G), ACT306ACA (967T>A), GAT308GAC (973T>C), GAC311GAT (982C>T), TAT314TAC (991T>C), TCA315TCT (994A>T), TCA316GAT (995T>G 996C>A 997A>T), ATC317TTG (998A>T 1000C>G), CAC319CAT (1006C>T), TTA322TTG (1015A>G), TTT324TAT (1020T>A), AAT326AGT (1026A>G), GAT327GAC (1030T>C), GTG328GTA (1033G>A), AAG329ACC (1035A>C 1036G>C), CTG331CTT (1042G>T), AAG332AAA (1045G>A), AAC334AAT (1051C>T), TCA335TCG (1054A>G), TTG337TTA (1060G>A), ATT339GTA (1064A>G 1066T>A), AGA342CGA (1073A>C), ACC343ACG (1078C>G), AGG345AGA (1084G>A), GGC346GAA (1086G>A 1087C>A), GCT348ACA (1091G>A 1093T>A), AAA352GCG (1103A>G 1104A>C 1105A>G), AGA354AGG (1111A>G), ACA356ATT (1116C>T 1117A>T), GTA357GTG (1120A>G), GAA359GAG (1126A>G), ATT362ATA (1135T>A), GAC366AAT (1145G>A 1147C>T), ATA367ATC (1150A>C), GCT368GCA (1153T>A), TAT369TAC (1156T>C), GAA370AAA (1157G>A), TAT371TAC (1162T>C), CGA373TCC (1166C>T 1167G>C 1168A>C), ACG374ACA (1171G>A), GGT375GGA (1174T>A), GCG377GCT (1180G>T), AAG378AAA (1183G>A), GTG379GTA (1186G>A), AAG383AAA (1198G>A), ACA385ACT (1204A>T), GCT386GCC (1207T>C), TTG389TTA (1216G>A), CTG391CTA (1222G>A), ATT393ATA (1228T>A), TCA394TCT (1231A>T), GCT395GCA (1234T>A), TTA397CTA (1238T>C), CTG398CTA (1243G>A), CAC399CAT (1246C>T), CAC400CAT (1249C>T), ACG403ACA (1258G>A), ATA405ATT (1264A>T), AGA406AGG (1267A>G), TTA412ATA (1283T>A), CTA413ATG (1286C>A 1288A>G), ACT415ATA (1293C>T 1294T>A), TTA418TCT (1302T>C 1303A>T), ACT419AAA (1305C>A 1306T>A), AAC420AAT (1309C>T), AGG422AAA (1314G>A 1315G>A), AGG423CGA (1316A>C 1318G>A), TTC424TTT (1321C>T), ATT425ATA (1324T>A), CCT426CCG (1327T>G), AAA427AAG (1330A>G), TTT433TAT (1347T>A), ATA434ATT (1351A>T), ATA437GTA (1358A>G), ATA438ATT (1363A>T), GAA440GAG (1369A>G), AAT441AAC (1372T>C), TTT443TTC (1378T>C), ATT444ATA (1381T>A), CCA447CCG (1390A>G), GTA450TTG (1397G>T 1399A>G), GTA452ACG (1403G>A 1404T>C 1405A>G), CTG453TTA (1406C>T 1408G>A), AAT454AGG (1410A>G 1411T>G), GAT455AAT (1412G>A), AGT456GAA (1415A>G 1416G>A 1417T>A), ATT458GTG (1421A>G 1423T>G), GTA459GTT (1426A>T), GCG460GCA (1429G>A), TAT462TAC (1435T>C), TTA464CTG (1439T>C 1441A>G), TCA465TCT (1444A>T), AAT466AAC (1447T>C), GAT467GAC (1450T>C), TCA472GAG (1463T>G 1464C>A 1465A>G), GAA473GAT (1468A>T), GTA474GTG (1471A>G), ATT475ATA (1474T>A), TTA477TTG (1480A>G), ATT478GTT (1481A>G), AAT479AAC (1486T>C), AAA482AAG (1495A>G), CAA483AAT (1496C>A 1498A>T), TCT484GCG (1499T>G 1501T>G), CTA485TTA (1502C>T), GTT488GTG (1513T>G), AGA489AGG (1516A>G), ACG493ACA (1528G>A), AAG495AAA (1534G>A), GTT500GTG (1549T>G), TTC502TTT (1555C>T), AAT504GAT (1559A>G), ATC505ATT (1564C>T), GAT507GAC (1570T>C), ACC509ACT (1576C>T), CTT511TTG (1580C>T 1582T>G), ACC513ACT (1588C>T), GAC514GAT (1591C>T), TTT515TTC (1594T>C), GAT516GAA (1597T>A), ACC517ACG (1600C>G), AAA518AAT (1603A>T), GAA519GAG (1606A>G), GCT520TCA (1607G>T 1609T>A), ATT522ATC (1615T>C), ACT523ACG (1618T>G), TAC525TAT (1624C>T), GAC526GAT (1627C>T), GGA530GGT (1639A>T), CTC531ATG (1640C>A 1642C>G), GGT533GGC (1648T>C), TTG534TTA (1651G>A), TCT535TCA (1654T>A), TCG537TCA (1660G>A), GCA539GCT (1666A>T), ACA543ACT (1678A>T), GGG544GGA (1681G>A), TTA548CTG (1691T>C 1693A>G), TTA551TTG (1702A>G), AGT552AGC (1705T>C), ACA554ACT (1711A>T), GAT555AAT (1712G>A), AAG556AAA (1717G>A), TAT558TTT (1722A>T), GCT564GCG (1741T>G), CAC566CAT (1747C>T), ACC567ATG (1749C>T 1750C>G), TCG570TCA (1759G>A), AGA572CGG (1763A>C 1765A>G), CAC574CAT (1771C>T), ATT576ATA (1777T>A), AGG577CGA (1778A>C 1780G>A), TCT581TCA (1792T>A), GCT582GCG (1795T>G), TAT588TAC (1813T>C), ATA589ATT (1816A>T), TTG593TTA (1828G>A), TCC594TCA (1831C>A), CTA600TTA (1847C>T), ATT601ATA (1852T>A), ACT603ACG (1858T>G), ATA605GTT (1862A>G 1864A>T), TCA608TCG (1873A>G), TCA610TCT (1879A>T), GGT611GGA (1882T>A), GTA613GTG (1888A>G), TAT614TAC (1891T>C), GCT616GCA (1897T>A), TTA617TTG (1900A>G), TTT626TTC (1927T>C), AAA629AAG (1936A>G), CGC630CGA (1939C>A), ATT632ATA (1945T>A), TAT633TAC (1948T>C), TCT636GCA (1955T>G 1957T>A), ATA637ACA (1959T>C), GAT638AAC (1961G>A 1963T>C), AAA639AAG (1966A>G), GTT640GCT (1968T>C), GAT641GGC (1971A>G 1972T>C), ATA642ATT (1975A>T), GGA644GGC (1981A>C), GGA645GGC (1984A>C), AAG646AGA (1986A>G 1987G>A), TAT647TAC (1990T>C), CTC650CAT (1998T>A 1999C>T), GCA651GCT (2002A>T), CCA652CCG (2005A>G), GAA654GAG (2011A>G), TTA655TTG (2014A>G), TAT657TAC (2020T>C), TCA661TCG (2032A>G), AAA663AAG (2038A>G), TTT665TTC (2044T>C), GCT666GCA (2047T>A), ACA667AAA (2049C>A), CAG669CAA (2056G>A), GAC671GAT (2062C>T), ACT673ACA (2068T>A), TTG675CTA (2072T>C 2074G>A), TCA678TCG (2083A>G), AAC679AAT (2086C>T), GAG682GAA (2095G>A), AAT683GAT (2096A>G), TAT684TAC (2101T>C), ACA687AAA (2109C>A), GTA688GTG (2113A>G), TAT689TAC (2116T>C), GCT694GCC (2131T>C), GAT695GAC (2134T>C), AAT698AAC (2143T>C), ATC701ATT (2152C>T), ATA703ATT (2158A>T), CAA704AAG (2159C>A 2161A>G), TTT705TTC (2164T>C), AGA706AAA (2166G>A), AAA711GAA (2180A>G), ATA716GTA (2195A>G), TTA719CTT (2204T>C 2206A>T), ACC720ACA (2209C>A), TTC721TTT (2212C>T), GGA722GGT (2215A>T), CAT725AAT (2222C>A), TCT727TCA (2230T>A), AAC729TCC (2234A>T 2235A>C), CCA732CCG (2245A>G), GAC733GAT (2248C>T), GTG734GTA (2251G>A), ATT735GTA (2252A>G 2254T>A), GAC736GCA (2256A>C 2257C>A), ATA737ATT (2260A>T), CTA738TTA (2261C>T), ATA740AAG (2268T>A 2269A>G), ATG741TTT (2270A>T 2272G>T), AAG742AAA (2275G>A), AAT743AGT (2277A>G), TTA745TTG (2284A>G), AAA747AGA (2289A>G), ATT750GTA (2297A>G 2299T>A), ACG751ACC (2302G>C), ACC752ACA (2305C>A), ACA755ACG (2314A>G), TTA758TTG (2323A>G), GGA761GAA (2331G>A), TAC763TAT (2338C>T), GTA764GTG (2341A>G), AAT766AAC (2347T>C), GTT767GTA (2350T>A), GGA769GGT (2356A>T), GTA770GTG (2359A>G), TCT772TCA (2365T>A), TAC774TAT (2371C>T), ATC777CTT (2378A>C 2380C>T), TAT778TAC (2383T>C), AAC779AAT (2386C>T), GTA780GCA (2388T>C), TTT781TTC (2392T>C), AAT784GAG (2399A>G 2401T>G), ATA786ATT (2407A>T), ACT787ACG (2410T>G), GGC789GGA (2416C>A), TCC791TCA (2422C>A), AGC801AGT (2452C>T), AAT803AGT (2457A>G), ATG805AAG (2463T>A), AGA806AAA (2466G>A), ACA807GTA (2468A>G 2469C>T), GTA808GTG (2473A>G), AGG809AGA (2476G>A), GAG811GAT (2482G>T), ACT812AGT (2484C>G), ACT813ACG (2488T>G), AAA814CGA (2489A>C 2490A>G), TTA815TTG (2494A>G), CAA816AAC (2495C>A 2497A>C), ATT817ATA (2500T>A), AAA818GAC (2501A>G 2503A>C), TCC819TTT (2505C>T 2506C>T), ATT820ATA (2509T>A), TTA822TTG (2515A>G), AGA823AGG (2518A>G), AAG824AAA (2521G>A), ATT825ATA (2524T>A), AAG826AAA (2527G>A), GGT827GGC (2530T>C), TTT831TTC (2542T>C), GTT834ACT (2549G>A 2550T>C)
Proteins

VP3 (YP_002302228.1)	1	836	100%	5089	88.2%	836 (100%)	709 (84.8%)	0/0/0/0	1
Protein mutations:	V19I (104G>A 106C>A), V21T (110G>A 111T>C), D24E (121T>A), S28D (131A>G 132G>A 133T>C), I50V (197A>G), E54Q (209G>C), I64V (239A>G 241T>A), A65E (243C>A 244T>A), L66I (245T>A), S68E (251T>G 252C>A 253A>G), L69M (254C>A 256T>G), E70D (259A>T), E85I (302G>A 303A>T 304A>T), L86D (305C>G 306T>A 307T>C), I89V (314A>G 316A>T), I109V (374A>G), E116D (397A>C), S132N (444G>A), E133D (448A>C), L153A (506C>G 507T>C), E161N (530G>A 532A>T), A162E (534C>A 535G>A), M169I (556G>A), P197K (638C>A 639C>A 640A>G), S198T (641T>A 643A>G), L200V (647T>G 649G>A), K201S (650A>T 651A>C), E202D (655A>T), K204S (660A>G 661G>T), N205R (663A>G 664T>A), N221D (710A>G), Y222H (713T>C 715T>C), T224S (719A>T 721T>A), A232P (743G>C 745G>C), I251L (800A>C), A268T (851G>A 853A>T), I269L (854A>T 856T>A), Y271Q (860T>C 862T>A), N274D (869A>G 871T>C), L275M (872T>A 874A>G), K277H (878A>C 880A>T), S278E (881A>G 882G>A 883T>G), I285V (902A>G 904C>A), Y294H (929T>C 931T>C), H298Q (943T>A), D301N (950G>A), F302L (955T>A), F303K (956T>A 957T>A 958C>G), S316D (995T>G 996C>A 997A>T), I317L (998A>T 1000C>G), F324Y (1020T>A), N326S (1026A>G), K329T (1035A>C 1036G>C), I339V (1064A>G 1066T>A), G346E (1086G>A 1087C>A), A348T (1091G>A 1093T>A), K352A (1103A>G 1104A>C 1105A>G), T356I (1116C>T 1117A>T), D366N (1145G>A 1147C>T), E370K (1157G>A), R373S (1166C>T 1167G>C 1168A>C), L412I (1283T>A), L413M (1286C>A 1288A>G), T415I (1293C>T 1294T>A), L418S (1302T>C 1303A>T), T419K (1305C>A 1306T>A), R422K (1314G>A 1315G>A), F433Y (1347T>A), I437V (1358A>G), V450L (1397G>T 1399A>G), V452T (1403G>A 1404T>C 1405A>G), N454R (1410A>G 1411T>G), D455N (1412G>A), S456E (1415A>G 1416G>A 1417T>A), I458V (1421A>G 1423T>G), S472E (1463T>G 1464C>A 1465A>G), E473D (1468A>T), I478V (1481A>G), Q483N (1496C>A 1498A>T), S484A (1499T>G 1501T>G), N504D (1559A>G), D516E (1597T>A), K518N (1603A>T), A520S (1607G>T 1609T>A), L531M (1640C>A 1642C>G), D555N (1712G>A), Y558F (1722A>T), T567M (1749C>T 1750C>G), I605V (1862A>G 1864A>T), S636A (1955T>G 1957T>A), I637T (1959T>C), D638N (1961G>A 1963T>C), V640A (1968T>C), D641G (1971A>G 1972T>C), K646R (1986A>G 1987G>A), L650H (1998T>A 1999C>T), T667K (2049C>A), N683D (2096A>G), T687K (2109C>A), Q704K (2159C>A 2161A>G), R706K (2166G>A), K711E (2180A>G), I716V (2195A>G), H725N (2222C>A), N729S (2234A>T 2235A>C), I735V (2252A>G 2254T>A), D736A (2256A>C 2257C>A), I740K (2268T>A 2269A>G), M741F (2270A>T 2272G>T), N743S (2277A>G), K747R (2289A>G), I750V (2297A>G 2299T>A), G761E (2331G>A), I777L (2378A>C 2380C>T), V780A (2388T>C), N784E (2399A>G 2401T>G), N803S (2457A>G), M805K (2463T>A), R806K (2466G>A), T807V (2468A>G 2469C>T), E811D (2482G>T), T812S (2484C>G), K814R (2489A>C 2490A>G), Q816N (2495C>A 2497A>C), K818D (2501A>G 2503A>C), S819F (2505C>T 2506C>T), V834T (2549G>A 2550T>C)
Codon mutations:	CTA4TTA (59C>T), CAC8CAT (73C>T), CAA12CAG (85A>G), GTG13GTA (88G>A), GCA15GCG (94A>G), GTC19ATA (104G>A 106C>A), TAC20TAT (109C>T), GTT21ACT (110G>A 111T>C), GAT24GAA (121T>A), ACA25ACC (124A>C), AGT28GAC (131A>G 132G>A 133T>C), TAT29TAC (136T>C), GAA30GAG (139A>G), GCT32GCA (145T>A), ATC35ATT (154C>T), CTT38CTC (163T>C), ACG39ACT (166G>T), ACC40ACA (169C>A), ATT43ATA (178T>A), TTA44TTG (181A>G), TAC45TAT (184C>T), TTA46CTA (185T>C), ATT50GTT (197A>G), AAA51AAG (202A>G), TTA53TTG (208A>G), GAA54CAA (209G>C), TTA56TTG (217A>G), AAG58AAA (223G>A), TCA59TCT (226A>T), GGA60GGT (229A>T), GCA63GCG (238A>G), ATT64GTA (239A>G 241T>A), GCT65GAA (243C>A 244T>A), TTA66ATA (245T>A), CAA67CAG (250A>G), TCA68GAG (251T>G 252C>A 253A>G), CTT69ATG (254C>A 256T>G), GAA70GAT (259A>T), TTA72TTG (265A>G), TTC73TTT (268C>T), ACA74ACG (271A>G), TTA75CTA (272T>C), ATA76ATT (277A>T), AGG77AGA (280G>A), TGT78TGC (283T>C), AAT79AAC (286T>C), ACT81ACA (292T>A), GAA85ATT (302G>A 303A>T 304A>T), CTT86GAC (305C>G 306T>A 307T>C), GAT87GAC (310T>C), ATA88ATT (313A>T), ATA89GTT (314A>G 316A>T), TAT90TAC (319T>C), TTA91CTT (320T>C 322A>T), TAT96TAC (337T>C), ACC98ACT (343C>T), GAA101GAG (352A>G), ATT102ATA (355T>A), AGA103AGG (358A>G), ACA104ACT (361A>T), GAC105GAT (364C>T), ATA109GTA (374A>G), ACA110ACT (379A>T), ATT114ATA (391T>A), GAA116GAC (397A>C), CTA119TTA (404C>T), CCT120CCA (409T>A), TTA124CTG (419T>C 421A>G), ACA125ACG (424A>G), GGT128GGA (433T>A), AAT130AAC (439T>C), AGT132AAT (444G>A), GAA133GAC (448A>C), ACT134ACA (451T>A), GGA136GGG (457A>G), CAT137CAC (460T>C), TCA141TCT (472A>T), AAC146AAT (487C>T), GCT147GCA (490T>A), GCA148GCT (493A>T), ACA149ACG (496A>G), GAT150GAC (499T>C), CTA153GCA (506C>G 507T>C), ATT155ATA (514T>A), TAC157TAT (520C>T), GAA161AAT (530G>A 532A>T), GCG162GAA (534C>A 535G>A), TTT168TTC (553T>C), ATG169ATA (556G>A), TTA170CTT (557T>C 559A>T), AAG172AAA (565G>A), ATA173ATC (568A>C), AAG174AAA (571G>A), AGA176AGG (577A>G), ACT178ACG (583T>G), TCG180TCA (589G>A), TTG181CTG (590T>C), CCT182CCA (595T>A), GCT184GCG (601T>G), TCT187TCG (610T>G), AAC188AAT (613C>T), AGA189CGT (614A>C 616A>T), GTA190GTG (619A>G), TTT191TTC (622T>C), AGG192AGA (625G>A), GAT193GAC (628T>C), AAG194AAA (631G>A), TTC196TTT (637C>T), CCA197AAG (638C>A 639C>A 640A>G), TCA198ACG (641T>A 643A>G), TTA199CTA (644T>C), TTG200GTA (647T>G 649G>A), AAA201TCA (650A>T 651A>C), GAA202GAT (655A>T), CAT203CAC (658T>C), AAG204AGT (660A>G 661G>T), AAT205AGA (663A>G 664T>A), GTG207GTT (670G>T), GGT210GGA (679T>A), CCG211CCA (682G>A), CGT212AGA (683C>A 685T>A), ACA218ACT (703A>T), TTA220CTA (707T>C), AAT221GAT (710A>G), TAT222CAC (713T>C 715T>C), CCA223CCG (718A>G), ACT224TCA (719A>T 721T>A), AAA226AAG (727A>G), GGT231GGA (742T>A), GCG232CCC (743G>C 745G>C), GTA235GTT (754A>T), ACT238ACG (763T>G), AAA240AAG (769A>G), TTA241CTT (770T>C 772A>T), GAA244GAG (781A>G), CGA245AGA (782C>A), TTA247CTC (788T>C 790A>C), AAA249AAG (796A>G), AGG250AGA (799G>A), ATA251CTA (800A>C), TCT252TCG (805T>G), CAG253CAA (808G>A), GAT255GAC (814T>C), AAA260AAG (829A>G), AAT261AAC (832T>C), CTG263CTA (838G>A), GTT265GTA (844T>A), CTT266TTA (845C>T 847T>A), GCA268ACT (851G>A 853A>T), ATT269TTA (854A>T 856T>A), TAT270TAC (859T>C), TAT271CAA (860T>C 862T>A), AAT274GAC (869A>G 871T>C), TTA275ATG (872T>A 874A>G), AAA277CAT (878A>C 880A>T), AGT278GAG (881A>G 882G>A 883T>G), AAA279AAG (886A>G), ATT281ATA (892T>A), ATA282ATT (895A>T), TAT283TAC (898T>C), ATC285GTA (902A>G 904C>A), TCT287TCA (910T>A), GCT288GCA (913T>A), CCA289CCT (916A>T), TCT290TCA (919T>A), TAT294CAC (929T>C 931T>C), GAC295GAT (934C>T), GTT296GTC (937T>C), CAT298CAA (943T>A), TAT299TAC (946T>C), TCC300TCT (949C>T), GAT301AAT (950G>A), TTT302TTA (955T>A), TTC303AAG (956T>A 957T>A 958C>G), GAA305GAG (964A>G), ACT306ACA (967T>A), GAT308GAC (973T>C), GAC311GAT (982C>T), TAT314TAC (991T>C), TCA315TCT (994A>T), TCA316GAT (995T>G 996C>A 997A>T), ATC317TTG (998A>T 1000C>G), CAC319CAT (1006C>T), TTA322TTG (1015A>G), TTT324TAT (1020T>A), AAT326AGT (1026A>G), GAT327GAC (1030T>C), GTG328GTA (1033G>A), AAG329ACC (1035A>C 1036G>C), CTG331CTT (1042G>T), AAG332AAA (1045G>A), AAC334AAT (1051C>T), TCA335TCG (1054A>G), TTG337TTA (1060G>A), ATT339GTA (1064A>G 1066T>A), AGA342CGA (1073A>C), ACC343ACG (1078C>G), AGG345AGA (1084G>A), GGC346GAA (1086G>A 1087C>A), GCT348ACA (1091G>A 1093T>A), AAA352GCG (1103A>G 1104A>C 1105A>G), AGA354AGG (1111A>G), ACA356ATT (1116C>T 1117A>T), GTA357GTG (1120A>G), GAA359GAG (1126A>G), ATT362ATA (1135T>A), GAC366AAT (1145G>A 1147C>T), ATA367ATC (1150A>C), GCT368GCA (1153T>A), TAT369TAC (1156T>C), GAA370AAA (1157G>A), TAT371TAC (1162T>C), CGA373TCC (1166C>T 1167G>C 1168A>C), ACG374ACA (1171G>A), GGT375GGA (1174T>A), GCG377GCT (1180G>T), AAG378AAA (1183G>A), GTG379GTA (1186G>A), AAG383AAA (1198G>A), ACA385ACT (1204A>T), GCT386GCC (1207T>C), TTG389TTA (1216G>A), CTG391CTA (1222G>A), ATT393ATA (1228T>A), TCA394TCT (1231A>T), GCT395GCA (1234T>A), TTA397CTA (1238T>C), CTG398CTA (1243G>A), CAC399CAT (1246C>T), CAC400CAT (1249C>T), ACG403ACA (1258G>A), ATA405ATT (1264A>T), AGA406AGG (1267A>G), TTA412ATA (1283T>A), CTA413ATG (1286C>A 1288A>G), ACT415ATA (1293C>T 1294T>A), TTA418TCT (1302T>C 1303A>T), ACT419AAA (1305C>A 1306T>A), AAC420AAT (1309C>T), AGG422AAA (1314G>A 1315G>A), AGG423CGA (1316A>C 1318G>A), TTC424TTT (1321C>T), ATT425ATA (1324T>A), CCT426CCG (1327T>G), AAA427AAG (1330A>G), TTT433TAT (1347T>A), ATA434ATT (1351A>T), ATA437GTA (1358A>G), ATA438ATT (1363A>T), GAA440GAG (1369A>G), AAT441AAC (1372T>C), TTT443TTC (1378T>C), ATT444ATA (1381T>A), CCA447CCG (1390A>G), GTA450TTG (1397G>T 1399A>G), GTA452ACG (1403G>A 1404T>C 1405A>G), CTG453TTA (1406C>T 1408G>A), AAT454AGG (1410A>G 1411T>G), GAT455AAT (1412G>A), AGT456GAA (1415A>G 1416G>A 1417T>A), ATT458GTG (1421A>G 1423T>G), GTA459GTT (1426A>T), GCG460GCA (1429G>A), TAT462TAC (1435T>C), TTA464CTG (1439T>C 1441A>G), TCA465TCT (1444A>T), AAT466AAC (1447T>C), GAT467GAC (1450T>C), TCA472GAG (1463T>G 1464C>A 1465A>G), GAA473GAT (1468A>T), GTA474GTG (1471A>G), ATT475ATA (1474T>A), TTA477TTG (1480A>G), ATT478GTT (1481A>G), AAT479AAC (1486T>C), AAA482AAG (1495A>G), CAA483AAT (1496C>A 1498A>T), TCT484GCG (1499T>G 1501T>G), CTA485TTA (1502C>T), GTT488GTG (1513T>G), AGA489AGG (1516A>G), ACG493ACA (1528G>A), AAG495AAA (1534G>A), GTT500GTG (1549T>G), TTC502TTT (1555C>T), AAT504GAT (1559A>G), ATC505ATT (1564C>T), GAT507GAC (1570T>C), ACC509ACT (1576C>T), CTT511TTG (1580C>T 1582T>G), ACC513ACT (1588C>T), GAC514GAT (1591C>T), TTT515TTC (1594T>C), GAT516GAA (1597T>A), ACC517ACG (1600C>G), AAA518AAT (1603A>T), GAA519GAG (1606A>G), GCT520TCA (1607G>T 1609T>A), ATT522ATC (1615T>C), ACT523ACG (1618T>G), TAC525TAT (1624C>T), GAC526GAT (1627C>T), GGA530GGT (1639A>T), CTC531ATG (1640C>A 1642C>G), GGT533GGC (1648T>C), TTG534TTA (1651G>A), TCT535TCA (1654T>A), TCG537TCA (1660G>A), GCA539GCT (1666A>T), ACA543ACT (1678A>T), GGG544GGA (1681G>A), TTA548CTG (1691T>C 1693A>G), TTA551TTG (1702A>G), AGT552AGC (1705T>C), ACA554ACT (1711A>T), GAT555AAT (1712G>A), AAG556AAA (1717G>A), TAT558TTT (1722A>T), GCT564GCG (1741T>G), CAC566CAT (1747C>T), ACC567ATG (1749C>T 1750C>G), TCG570TCA (1759G>A), AGA572CGG (1763A>C 1765A>G), CAC574CAT (1771C>T), ATT576ATA (1777T>A), AGG577CGA (1778A>C 1780G>A), TCT581TCA (1792T>A), GCT582GCG (1795T>G), TAT588TAC (1813T>C), ATA589ATT (1816A>T), TTG593TTA (1828G>A), TCC594TCA (1831C>A), CTA600TTA (1847C>T), ATT601ATA (1852T>A), ACT603ACG (1858T>G), ATA605GTT (1862A>G 1864A>T), TCA608TCG (1873A>G), TCA610TCT (1879A>T), GGT611GGA (1882T>A), GTA613GTG (1888A>G), TAT614TAC (1891T>C), GCT616GCA (1897T>A), TTA617TTG (1900A>G), TTT626TTC (1927T>C), AAA629AAG (1936A>G), CGC630CGA (1939C>A), ATT632ATA (1945T>A), TAT633TAC (1948T>C), TCT636GCA (1955T>G 1957T>A), ATA637ACA (1959T>C), GAT638AAC (1961G>A 1963T>C), AAA639AAG (1966A>G), GTT640GCT (1968T>C), GAT641GGC (1971A>G 1972T>C), ATA642ATT (1975A>T), GGA644GGC (1981A>C), GGA645GGC (1984A>C), AAG646AGA (1986A>G 1987G>A), TAT647TAC (1990T>C), CTC650CAT (1998T>A 1999C>T), GCA651GCT (2002A>T), CCA652CCG (2005A>G), GAA654GAG (2011A>G), TTA655TTG (2014A>G), TAT657TAC (2020T>C), TCA661TCG (2032A>G), AAA663AAG (2038A>G), TTT665TTC (2044T>C), GCT666GCA (2047T>A), ACA667AAA (2049C>A), CAG669CAA (2056G>A), GAC671GAT (2062C>T), ACT673ACA (2068T>A), TTG675CTA (2072T>C 2074G>A), TCA678TCG (2083A>G), AAC679AAT (2086C>T), GAG682GAA (2095G>A), AAT683GAT (2096A>G), TAT684TAC (2101T>C), ACA687AAA (2109C>A), GTA688GTG (2113A>G), TAT689TAC (2116T>C), GCT694GCC (2131T>C), GAT695GAC (2134T>C), AAT698AAC (2143T>C), ATC701ATT (2152C>T), ATA703ATT (2158A>T), CAA704AAG (2159C>A 2161A>G), TTT705TTC (2164T>C), AGA706AAA (2166G>A), AAA711GAA (2180A>G), ATA716GTA (2195A>G), TTA719CTT (2204T>C 2206A>T), ACC720ACA (2209C>A), TTC721TTT (2212C>T), GGA722GGT (2215A>T), CAT725AAT (2222C>A), TCT727TCA (2230T>A), AAC729TCC (2234A>T 2235A>C), CCA732CCG (2245A>G), GAC733GAT (2248C>T), GTG734GTA (2251G>A), ATT735GTA (2252A>G 2254T>A), GAC736GCA (2256A>C 2257C>A), ATA737ATT (2260A>T), CTA738TTA (2261C>T), ATA740AAG (2268T>A 2269A>G), ATG741TTT (2270A>T 2272G>T), AAG742AAA (2275G>A), AAT743AGT (2277A>G), TTA745TTG (2284A>G), AAA747AGA (2289A>G), ATT750GTA (2297A>G 2299T>A), ACG751ACC (2302G>C), ACC752ACA (2305C>A), ACA755ACG (2314A>G), TTA758TTG (2323A>G), GGA761GAA (2331G>A), TAC763TAT (2338C>T), GTA764GTG (2341A>G), AAT766AAC (2347T>C), GTT767GTA (2350T>A), GGA769GGT (2356A>T), GTA770GTG (2359A>G), TCT772TCA (2365T>A), TAC774TAT (2371C>T), ATC777CTT (2378A>C 2380C>T), TAT778TAC (2383T>C), AAC779AAT (2386C>T), GTA780GCA (2388T>C), TTT781TTC (2392T>C), AAT784GAG (2399A>G 2401T>G), ATA786ATT (2407A>T), ACT787ACG (2410T>G), GGC789GGA (2416C>A), TCC791TCA (2422C>A), AGC801AGT (2452C>T), AAT803AGT (2457A>G), ATG805AAG (2463T>A), AGA806AAA (2466G>A), ACA807GTA (2468A>G 2469C>T), GTA808GTG (2473A>G), AGG809AGA (2476G>A), GAG811GAT (2482G>T), ACT812AGT (2484C>G), ACT813ACG (2488T>G), AAA814CGA (2489A>C 2490A>G), TTA815TTG (2494A>G), CAA816AAC (2495C>A 2497A>C), ATT817ATA (2500T>A), AAA818GAC (2501A>G 2503A>C), TCC819TTT (2505C>T 2506C>T), ATT820ATA (2509T>A), TTA822TTG (2515A>G), AGA823AGG (2518A>G), AAG824AAA (2521G>A), ATT825ATA (2524T>A), AAG826AAA (2527G>A), GGT827GGC (2530T>C), TTT831TTC (2542T>C), GTT834ACT (2549G>A 2550T>C)

^*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43